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United States Department of Agriculture

Agricultural Research Service

Research Project: Cool Season Grain Legume Genetic Enhancement and Pathology

Location: Grain Legume Genetics Physiology Research

Title: A Bac/bibac-Based Physical Map of Chickpea, Cicer Arietinum L.

Authors
item Zhang, Xiaojun -
item Scheuring, Chantel -
item Zhang, Meiping -
item Dong, Jennifer -
item Zhang, Yang -
item Huang, James -
item Lee, Mi-Kyung -
item Abbo, Shahal -
item Sherman, Amir -
item Shtienberg, Dani -
item Chen, Weidong
item Muehlbauer, Frederick
item Zhang, Hong-Bin -

Submitted to: Biomed Central (BMC) Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: September 17, 2011
Publication Date: September 17, 2011
Citation: Zhang, X., Scheuring, C.F., Zhang, M., Dong, J.J., Zhang, Y., Huang, J.J., Lee, M., Abbo, S., Sherman, A., Shtienberg, D., Chen, W., Muehlbauer, F.J., Zhang, H. 2011. A BAC/BIBAC-based physical map of chickpea, Cicer arietinum L.. Biomed Central (BMC) Genomics. 11:501.

Interpretive Summary: Chickpea is an important pulse crop worldwide, but little is known about its genome. A genome-wide physical map is needed in order to allow rapid fine mapping of QTL and development of high-density genome maps. This article presents a large DNA library of chickpea developed by fingerprint analysis.This represents the first physical map of chickpea, and will provide a foundation necessary for many areas of advanced genomics research in chickpea and other legume species.

Technical Abstract: Chickpea (Cicer arietinum L.) is the third most important pulse crop worldwide. Despite its importance, relatively little is known about its genome. The availability of a genome-wide physical map allows rapid fine mapping of QTL, development of high-density genome maps, and sequencing of the entire genome. However, no such a physical map has been developed in chickpea. We present a genome-wide, BAC/BIBAC-based physical map of chickpea developed by fingerprint analysis. Four chickpea BAC and BIBAC libraries, two of which were constructed in this study, were used. A total of 67,584 clones were fingerprinted, and 64,211 (~11.6 x) of the fingerprints validated and used in the physical map assembly. The physical map consists of 1,945 BAC/BIBAC contigs, with each containing an average of 28.3 clones and having an average physical length of 559 kb. The contigs collectively span approximately 1,088 Mb. By using the physical map, we identified the BAC/BIBAC contigs containing or closely linked to QTL4.1 for resistance to Didymella rabiei (RDR) and QTL8 for days to first flower (DTF), thus further verifying the physical map and confirming its utility in fine mapping and cloning of QTL. The physical map represents the first genome-wide, BAC/BIBAC-based physical map of chickpea. This map, along with other genomic resources previously developed in the species and the genome sequences of related species (soybean, Medicago and Lotus), will provide a foundation necessary for many areas of advanced genomics research in chickpea andother legume species. The inclusion of transformation-ready BIBACs in the map greatly facilitate its utility in functional analysis of the legume genomes.

Last Modified: 8/30/2014
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